Open Access. Powered by Scholars. Published by Universities.®

OS and Networks Commons

Open Access. Powered by Scholars. Published by Universities.®

Life Sciences

Institution
Keyword
Publication Year
Publication
Publication Type

Articles 151 - 180 of 642

Full-Text Articles in OS and Networks

A Scalable Distributed Syntactic, Semantic And Lexical Language Model, Ming Tan, Wenli Zhou, Lei Zheng, Shaojun Wang Jan 2012

A Scalable Distributed Syntactic, Semantic And Lexical Language Model, Ming Tan, Wenli Zhou, Lei Zheng, Shaojun Wang

Kno.e.sis Publications

This paper presents an attempt at building a large scale distributed composite language model that is formed by seamlessly integrating an n-gram model, a structured language model, and probabilistic latent semantic analysis under a directed Markov random field paradigm to simultaneously account for local word lexical information, mid-range sentence syntactic structure, and long-span document semantic content. The composite language model has been trained by performing a convergent N-best list approximate EM algorithm and a follow-up EM algorithm to improve word prediction power on corpora with up to a billion tokens and stored on a supercomputer. The large scale distributed composite …


Alignment-Based Querying Of Linked Open Data, Amit Krishna Joshi, Prateek Jain, Pascal Hitzler, Peter Z. Yeh, Kunal Verma, Amit P. Sheth, Mariana Damova Jan 2012

Alignment-Based Querying Of Linked Open Data, Amit Krishna Joshi, Prateek Jain, Pascal Hitzler, Peter Z. Yeh, Kunal Verma, Amit P. Sheth, Mariana Damova

Kno.e.sis Publications

The Linked Open Data (LOD) cloud is rapidly becoming the largest interconnected source of structured data on diverse domains. The potential of the LOD cloud is enormous, ranging from solving challenging AI issues such as open domain question answering to automated knowledge discovery. However, due to an inherent distributed nature of LOD and a growing number of ontologies and vocabularies used in LOD datasets, querying over multiple datasets and retrieving LOD data remains a challenging task. In this paper, we propose a novel approach to querying linked data by using alignments for processing queries whose constituent data come from heterogeneous …


Extracting Diverse Sentiment Expressions With Target-Dependent Polarity From Twitter, Lu Chen, Wenbo Wang, Meenakshi Nagarajan, Shaojun Wang, Amit P. Sheth Jan 2012

Extracting Diverse Sentiment Expressions With Target-Dependent Polarity From Twitter, Lu Chen, Wenbo Wang, Meenakshi Nagarajan, Shaojun Wang, Amit P. Sheth

Kno.e.sis Publications

This study focuses on automatic extraction of sentiment expressions associated with given targets from Twitter. It addresses one of the key challenges in this work: Wide diversity and informal nature of sentiment expressions that cannot be trivially enumerated or captured using predefined lexical patterns.


On The Role Of Social Identity And Cohesion In Characterizing Online Social Communities, Hemant Purohit, Yiye Ruan, David Fuhry, Srinivasan Parthasarathy, Amit P. Sheth Jan 2012

On The Role Of Social Identity And Cohesion In Characterizing Online Social Communities, Hemant Purohit, Yiye Ruan, David Fuhry, Srinivasan Parthasarathy, Amit P. Sheth

Kno.e.sis Publications

Two prevailing theories for explaining social group or community structure are cohesion and identity. The social cohesion approach posits that social groups arise out of an aggregation of individuals that have mutual interpersonal attraction as they share common characteristics. These characteristics can range from common interests to kinship ties and from social values to ethnic backgrounds. In contrast, the social identity approach posits that an individual is likely to join a group based on an intrinsic self-evaluation at a cognitive or perceptual level. In other words group members typically share an awareness of a common category membership. In this work …


Role Of Semantic Web In Health Informatics, Satya S. Sahoo, Guo-Qiang Zhang, Amit P. Sheth Jan 2012

Role Of Semantic Web In Health Informatics, Satya S. Sahoo, Guo-Qiang Zhang, Amit P. Sheth

Kno.e.sis Publications

This tutorial weaves together three themes and the associated topics: [1] The role of biomedical ontologies [2] Key Semantic Web technologies with focus on Semantic provenance and integration [3] In-practice tools and real world use cases built to serve the needs of sleep medicine researchers, cardiologists involved in clinical practice, and work on vaccine development for human pathogens.


Semantics And Ontologies For Earthcube, Gary Berg-Cross, Isabel F. Cruz, Michael Dean, Timothy Finin, Mark Gahegan, Pascal Hitzler, Hook Hau, Krzysztof Janowicz, Naicong Li, Philip Murphy, Bryce Nordgren, Leo Obrst, Mark Schildhauer, Amit P. Sheth, Krishna Sinha, Anne Thessen, Nancy Wiegand, Ilya Zaslavasky Jan 2012

Semantics And Ontologies For Earthcube, Gary Berg-Cross, Isabel F. Cruz, Michael Dean, Timothy Finin, Mark Gahegan, Pascal Hitzler, Hook Hau, Krzysztof Janowicz, Naicong Li, Philip Murphy, Bryce Nordgren, Leo Obrst, Mark Schildhauer, Amit P. Sheth, Krishna Sinha, Anne Thessen, Nancy Wiegand, Ilya Zaslavasky

Kno.e.sis Publications

Semantic technologies and ontologies play an increasing role in scientific workflow systems and knowledge infrastructures. While ontologies are mostly used for the semantic annotation of metadata, semantic technologies enable searching metadata catalogs beyond simple keywords, with some early evidence of semantics used for data translation. However, the next generation of distributed and interdisciplinary knowledge infrastructures will require capabilities beyond simple subsumption reasoning over subclass relations. In this work, we report from the EarthCube Semantics Community by highlighting which role semantics and ontologies should play in the EarthCube knowledge infrastructure. We target the interested domain scientist and, thus, introduce the value …


Key Ingredients For Your Next Semantics Elevator Talk, Krzysztof Janowicz, Pascal Hitzler Jan 2012

Key Ingredients For Your Next Semantics Elevator Talk, Krzysztof Janowicz, Pascal Hitzler

Computer Science and Engineering Faculty Publications

2012 brought a major change to the semantics research community. Discussions on the use and benefits of semantic technologies are shifting away from the why to the how. Surprisingly this more in stakeholder interest is not accompanied by a more detailed understanding of what semantics research is about. Instead of blaming others for their (wrong) expectations, we need to learn how to emphasize the paradigm shift proposed by semantics research while abstracting from technical details and advocate the added value in a way that relates to the immediate needs of individual stakeholders without overselling. This paper highlights some of …


Open And Transparent: The Review Process Of The Semantic Web Journal, Krzysztof Janowicz, Pascal Hitzler Jan 2012

Open And Transparent: The Review Process Of The Semantic Web Journal, Krzysztof Janowicz, Pascal Hitzler

Computer Science and Engineering Faculty Publications

While open access is established in the world of academic publishing, open reviews are rare. The Semantic Web journal goes further than just open review by implementing an open and transparent review process in which reviews are publicly available, and the assigned editors and reviewers are known by name, and are published together with accepted manuscripts. In this article we introduce the steps to realize such a process from the conceptual design, over the implementation, a overview of the results so far, and up to lessons learned.


The Ontology For Parasite Lifecycle (Opl): Towards A Consistent Vocabulary Of Lifecycle Stages In Parasitic Organisms, Priti Parikh, Jie Zheng, Flora J. Logan-Klumpler, Christian J. Stoeckert, Pantelis Topalis, Anna Protasio, Amit P. Sheth, Mark Carrington, Matthew Berriman, Satya S. Sahoo Jan 2012

The Ontology For Parasite Lifecycle (Opl): Towards A Consistent Vocabulary Of Lifecycle Stages In Parasitic Organisms, Priti Parikh, Jie Zheng, Flora J. Logan-Klumpler, Christian J. Stoeckert, Pantelis Topalis, Anna Protasio, Amit P. Sheth, Mark Carrington, Matthew Berriman, Satya S. Sahoo

Kno.e.sis Publications

Background

Genome sequencing of many eukaryotic pathogens and the volume of data available on public resources have created a clear requirement for a consistent vocabulary to describe the range of developmental forms of parasites. Consistent labeling of experimental data and external data, in databases and the literature, is essential for integration, cross database comparison, and knowledge discovery. The primary objective of this work was to develop a dynamic and controlled vocabulary that can be used for various parasites. The paper describes the Ontology for Parasite Lifecycle (OPL) and discusses its application in parasite research.

Results

The OPL is based on …


Towards Cloud Mobile Hybrid Application Generation Using Semantically Enriched Domain Specific Languages, Ajith Harshana Ranabahu, Amit P. Sheth, Ashwin Manjunatha, Krishnaprasad Thirunarayan Jan 2012

Towards Cloud Mobile Hybrid Application Generation Using Semantically Enriched Domain Specific Languages, Ajith Harshana Ranabahu, Amit P. Sheth, Ashwin Manjunatha, Krishnaprasad Thirunarayan

Kno.e.sis Publications

The advancements in computing have resulted in a boom of cheap, ubiquitous, connected mobile devices as well as seemingly unlimited, utility style, pay as you go computing resources, commonly referred to as Cloud computing. Taking advantage of this computing landscape, however, has been hampered by the many heterogeneities that exist in the mobile space as well as the Cloud space.

This research attempts to introduce a disciplined methodology to develop Cloud-mobile hybrid applications by using a Domain Specific Language (DSL) centric approach to generate applications. A Cloud-mobile hybrid is an application that is split between a Cloud based back-end and …


Resident Identification Using Kinect Depth Image Data And Fuzzy Clustering Techniques, Tanvi Banerjee, James M. Keller, Marjorie Skubic Jan 2012

Resident Identification Using Kinect Depth Image Data And Fuzzy Clustering Techniques, Tanvi Banerjee, James M. Keller, Marjorie Skubic

Kno.e.sis Publications

As a part of our passive fall risk assessment research in home environments, we present a method to identify older residents using features extracted from their gait information from a single depth camera. Depth images have been collected continuously for about eight months from several apartments at a senior housing facility. Shape descriptors such as bounding box information and image moments were extracted from silhouettes of the depth images. The features were then clustered using Possibilistic C Means for resident identification. This technology will allow researchers and health professionals to gather more information on the individual residents by filtering out …


Overview Of Contrast Data Mining As A Field And Preview Of An Upcoming Book, Guozhu Dong, James Bailey Dec 2011

Overview Of Contrast Data Mining As A Field And Preview Of An Upcoming Book, Guozhu Dong, James Bailey

Kno.e.sis Publications

This report provides an overview of the field of contrast data mining and its applications, and offers a preview of an upcoming book on the topic. The importance of contrasting is discussed and a brief survey is given covering the following topics: general definitions and terminology for contrast patterns, representative contrast pattern mining algorithms, applications of contrast mining for fundamental data mining tasks such as classification and clustering, applications of contrast mining in bioinformatics, medicine, blog analysis, image analysis and subgroup mining, results on contrast based dataset similarity measure, and on analyzing item interaction in contrast patterns, and open research …


Computing Inconsistency Measure Based On Paraconsistent Semantics, Pascal Hitzler, Yue Ma, Guilin Qi Dec 2011

Computing Inconsistency Measure Based On Paraconsistent Semantics, Pascal Hitzler, Yue Ma, Guilin Qi

Computer Science and Engineering Faculty Publications

Measuring inconsistency in knowledge bases has been recognized as an important problem in several research areas. Many methods have been proposed to solve this problem and a main class of them is based on some kind of paraconsistent semantics. However, existing methods suffer from two limitations: (i) they are mostly restricted to propositional knowledge bases; (ii) very few of them discuss computational aspects of computing inconsistency measures. In this article, we try to solve these two limitations by exploring algorithms for computing an inconsistency measure of first-order knowledge bases. After introducing a four-valued semantics for first-order logic, we define an …


The Knowledge-Driven Exploration Of Integrated Biomedical Knowledge Sources Facilitates The Generation Of New Hypotheses, Vinh Nguyen, Olivier Bodenreider, Todd Minning, Amit P. Sheth Oct 2011

The Knowledge-Driven Exploration Of Integrated Biomedical Knowledge Sources Facilitates The Generation Of New Hypotheses, Vinh Nguyen, Olivier Bodenreider, Todd Minning, Amit P. Sheth

Kno.e.sis Publications

Knowledge gained from the scientific literature can complement newly obtained experimental data in helping researchers understand the pathological processes underlying diseases. However, unless the scientific literature and experimental data are semantically integrated, it is generally difficult for scientists to exploit the two sources effectively. We argue that, in addition to the semantic integration of heterogeneous knowledge sources, the usability of the integrated resource by scientists is dependent upon the availability of knowledge visualization and exploration tools. Moreover, the integration techniques must be scalable and the exploration interfaces must be easy to use by bench scientists. The end goal of such …


Demonstration: Secure - Semantics Empowered Rescue Environment, Pratikkumar Desai, Cory Andrew Henson, Pramod Anantharam, Amit P. Sheth Oct 2011

Demonstration: Secure - Semantics Empowered Rescue Environment, Pratikkumar Desai, Cory Andrew Henson, Pramod Anantharam, Amit P. Sheth

Kno.e.sis Publications

This paper demonstrates a Semantic Web enabled system for collecting and processing sensor data within a rescue environment. The real-time system collects heterogeneous raw sensor data from rescue robots through a wireless sensor network. The raw sensor data is converted to RDF using the Semantic Sensor Network (SSN) ontology and further processed to generate abstractions used for event detection in emergency scenarios.


Demonstration: Real-Time Semantic Analysis Of Sensor Streams, Harshal Patni, Cory Andrew Henson, Michael Cooney, Amit P. Sheth, Krishnaprasad Thirunarayan Oct 2011

Demonstration: Real-Time Semantic Analysis Of Sensor Streams, Harshal Patni, Cory Andrew Henson, Michael Cooney, Amit P. Sheth, Krishnaprasad Thirunarayan

Kno.e.sis Publications

The emergence of dynamic information sources – including sensor networks – has led to large streams of real-time data on the Web. Research studies suggest, these dynamic networks have created more data in the last three years than in the entire history of civilization, and this trend will only increase in the coming years [1]. With this coming data explosion, real-time analytics software must either adapt or die [2]. This paper focuses on the task of integrating and analyzing multiple heterogeneous streams of sensor data with the goal of creating meaningful abstractions, or features. These features are then temporally aggregated …


Sempush: Privacy-Aware And Scalable Broadcasting For Semantic Microblogging, Pavan Kapanipathi, Julia Anaya, Alexandre Passant Oct 2011

Sempush: Privacy-Aware And Scalable Broadcasting For Semantic Microblogging, Pavan Kapanipathi, Julia Anaya, Alexandre Passant

Kno.e.sis Publications

Users of traditional microblogging platforms such as Twitter face drawbacks in terms of (1) Privacy of status updates as a followee - reaching undesired people (2) Information overload as a follower - receiving uninteresting microposts from followees. In this paper we demonstrate distributed and user-controlled dissemination of microposts using SMOB (semantic microblogging framework) and Semantic Hub (privacy-aware implementation of PuSH3 protocol) . The approach leverages users' Social Graph to dynamically create group of followers who are eligible to receive micropost. The restrictions to create the groups are provided by the followee based on the hastags in the micropost. Both SMOB …


Semantic Annotation And Search For Resources In The Next Generation Web With Sa-Rest, Ajith H. Ranabahu, Amit P. Sheth, Maryam Panahiazar, Sanjaya Wijeratne Oct 2011

Semantic Annotation And Search For Resources In The Next Generation Web With Sa-Rest, Ajith H. Ranabahu, Amit P. Sheth, Maryam Panahiazar, Sanjaya Wijeratne

Kno.e.sis Publications

SA-REST, the W3C member submission, can be used for supporting a wide variety of Plain Old Semantic HTML (POSH) annotation capabilities on any type of Web resource. Kino framework and tools provide support of capabilities to realize SA-RESTs promised value. These tools include (a) a browser-plugin to support annotation of a Web resource (including services) with respect to an ontology, domain model or vocabulary, (b) an annotation aware indexing engine and (c) faceted search and selection of the Web resources. At one end of the spectrum, we present KinoE (aka Kino for Enterprise) which uses NCBO formal ontologies and …


A Domain Specific Language For Enterprise Grade Cloud-Mobile Hybrid Applications, Ajith H. Ranabahu, E. Michael Maximilien, Amit P. Sheth, Krishnaprasad Thirunarayan Oct 2011

A Domain Specific Language For Enterprise Grade Cloud-Mobile Hybrid Applications, Ajith H. Ranabahu, E. Michael Maximilien, Amit P. Sheth, Krishnaprasad Thirunarayan

Kno.e.sis Publications

Cloud computing has changed the technology landscape by offering flexible and economical computing resources to the masses. However, vendor lock-in makes the migration of applications and data across clouds an expensive proposition. The lock-in is especially serious when considering the new technology trend of combining cloud with mobile devices.

In this paper, we present a domain specific language (DSL) that is purposely created for generating hybrid applications spanning across mobile devices as well as computing clouds. We propose a model-driven development process that makes use of a DSL to provide sufficient programming abstractions over both cloud and mobile features. We …


Personalized Filtering Of The Twitter Stream, Pavan Kapanipathi, Fabrizio Orlandi, Amit P. Sheth, Alexandre Passant Oct 2011

Personalized Filtering Of The Twitter Stream, Pavan Kapanipathi, Fabrizio Orlandi, Amit P. Sheth, Alexandre Passant

Kno.e.sis Publications

With the rapid growth in users on social networks, there is a corresponding increase in user-generated content, in turn resulting in information overload. On Twitter, for example, users tend to receive uninterested information due to their non-overlapping interests from the people whom they follow. In this paper we present a Semantic Web approach to filter public tweets matching interests from personalized user profiles. Our approach includes automatic generation of multi-domain and personalized user profiles, filtering Twitter stream based on the generated profiles and delivering them in real-time. Given that users interests and personalization needs change with time, we also discuss …


Semantic Computing In Real-World: Vertical And Horizontal Application Within Enterprise And On The Web, Amit P. Sheth Sep 2011

Semantic Computing In Real-World: Vertical And Horizontal Application Within Enterprise And On The Web, Amit P. Sheth

Kno.e.sis Publications

No abstract provided.


Kino: A Generic Document Management System For Biologists Using Sa-Rest And Faceted Search, Ajith Harshana Ranabahu, Priti Parikh, Maryam Panahiazar, Amit P. Sheth Sep 2011

Kino: A Generic Document Management System For Biologists Using Sa-Rest And Faceted Search, Ajith Harshana Ranabahu, Priti Parikh, Maryam Panahiazar, Amit P. Sheth

Kno.e.sis Publications

Document management has become an important consideration for the scientific community over the last decade. Human knowledge is central to many scientific domains, thus it is not possible to completely automate the document management process. Managing scientific documents require a semi-automatic approach to overcome issues of large volume, yet support the human participation in the process. In this paper we present Kino, a set of tools that streamline the document management process in life science domains. Kino is integrated with National Center for Biomedical Ontology (NCBO), providing scientists access to quality domain models. Annotated documents are indexed using a faceted …


Citizen Sensing: Opportunities And Challenges In Mining Social Signals And Perceptions, Amit P. Sheth Jul 2011

Citizen Sensing: Opportunities And Challenges In Mining Social Signals And Perceptions, Amit P. Sheth

Kno.e.sis Publications

Millions of persons have become 'citizens' of an Internet- or Web-enabled social community. Web 2.0 fostered the open environment and applications for tagging, blogging, wikis, and social networking sites that have made information consumption, production, and sharing so incredibly easy. An interconnected network of people who actively observe, report, collect, analyze, and disseminate information via text, audio, or video messages, increasingly through pervasively connected mobile devices, has led to what we term citizen sensing. In this talk, we review recent progress in supporting collective intelligence through intelligent processing of citizen sensing. Key issues we cover in this talk are: - …


Local Closed World Semantics: Keep It Simple, Stupid!, Adila Krishnadhi, Kunal Sengupta, Pascal Hitzler Jul 2011

Local Closed World Semantics: Keep It Simple, Stupid!, Adila Krishnadhi, Kunal Sengupta, Pascal Hitzler

Computer Science and Engineering Faculty Publications

A combination of open and closed-world reasoning (usually called local closed world reasoning) is a desirable capability of knowledge representation formalisms for Semantic Web applications. However, none of the proposals made to date for extending description logics with local closed world capabilities has had any significant impact on applications. We believe that one of the key reasons for this is that current proposals fail to provide approaches which are intuitively accessible for application developers at the same time are applicable, as extensions, to expressive description logics as SROIQ, which underlies the Web Ontology Language OWL.

In this paper, we propose …


Web Wisdom: An Essay On How Web 2.0 And Semantic Web Can Foster A Global Knowledge Society, Christopher Thomas, Amit P. Sheth Jul 2011

Web Wisdom: An Essay On How Web 2.0 And Semantic Web Can Foster A Global Knowledge Society, Christopher Thomas, Amit P. Sheth

Kno.e.sis Publications

Admittedly this is a presumptuous title that should never be used when reporting on individual research advances. Wisdom is just not a scientific concept. In this case, though, we are reporting on recent developments on the web that lead us to believe that the web is on the way to providing a platform for not only information acquisition and business transactions but also for large scale knowledge development and decision support. It is likely that by now every web user has participated in some sort of social function or knowledge accumulating function on the web, many times without even being …


Smob: The Best Of Both Worlds, Alexandre Passant, Julia Anaya, Owen Sacco, Pavan Kapanipathi Jun 2011

Smob: The Best Of Both Worlds, Alexandre Passant, Julia Anaya, Owen Sacco, Pavan Kapanipathi

Kno.e.sis Publications

This paper presents the architecture of SMOB and the way it combines Semantic Web standards (RDF(S) / SPARQL) and new protocols such as PubSubHubbub to enable a Federated and Privacy-Aware Social Web.


Automatic Domain Model Creation Using Pattern-Based Fact Extraction, Christopher Thomas, Pankaj Mehra, Wenbo Wang, Amit P. Sheth, Gerhard Weikum, Victor Chan Jun 2011

Automatic Domain Model Creation Using Pattern-Based Fact Extraction, Christopher Thomas, Pankaj Mehra, Wenbo Wang, Amit P. Sheth, Gerhard Weikum, Victor Chan

Kno.e.sis Publications

This paper describes a minimally guided approach to automatic domain model creation. The first step is to carve an area of interest out of the Wikipedia hierarchy based on a simple query or other starting point. The second step is to connect the concepts in this domain hierarchy with named relationships. A starting point is provided by Linked Open Data, such as DBPedia. Based on these community-generated facts we train a pattern-based fact-extraction algorithm to augment a domain hierarchy with previously unknown relationship occurrences. Pattern vectors are learned that represent occurrences of relationships between concepts. The process described can be …


Privacy-By-Design In Federated Social Web Applications, Alexandre Passant, Owen Sacco, Julia Anaya, Pavan Kapanipathi Jun 2011

Privacy-By-Design In Federated Social Web Applications, Alexandre Passant, Owen Sacco, Julia Anaya, Pavan Kapanipathi

Kno.e.sis Publications

No abstract provided.


Local Closed-World Reasoning With Description Logics Under The Well-Founded Semantics, Matthias Knorr, Jose Julio Alferes, Pascal Hitzler Jun 2011

Local Closed-World Reasoning With Description Logics Under The Well-Founded Semantics, Matthias Knorr, Jose Julio Alferes, Pascal Hitzler

Computer Science and Engineering Faculty Publications

An important question for the upcoming Semantic Web is how to best combine open world ontology languages, such as the OWL-based ones, with closed world rule-based languages. One of the most mature proposals for this combination is known as hybrid MKNF knowledge bases (Motik and Rosati, 2010 [52]), and it is based on an adaptation of the Stable Model Semantics to knowledge bases consisting of ontology axioms and rules. In this paper we propose a well-founded semantics for nondisjunctive hybrid MKNF knowledge bases that promises to provide better efficiency of reasoning, and that is compatible with both the OWL-based …


What's Happening In Semantic Web ... And What Fca Could Have To Do With It, Pascal Hitzler May 2011

What's Happening In Semantic Web ... And What Fca Could Have To Do With It, Pascal Hitzler

Computer Science and Engineering Faculty Publications

The Semantic Web is gaining momentum. Driven by over 10 years of focused project funding in the US and the EU, Semantic Web Technologies are now entering application areas in industry, academia, government, and the open Web.

The Semantic Web is based on the idea of describing the meaning - or semantics - of data on the Web using metadata - data that describes other data - in the form of ontologies, which are represented using logic-based knowledge representation languages. Central to the transfer of Semantic Web into practice is the Linked Open Data effort, which has already resulted in …